Gene detail

Detailed information of OS493_025370-T1 in Lophelia pertusa

Genomic Location: scaffold_124:248063...257585
NR annotation: KAJ7371471.1, hypothetical protein OS493_025370 [Desmophyllum pertusum]
Species Lophelia pertusa · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

Transcript

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
Q99K70	Ras-related GTP-binding protein C OS=Mus musculus OX=10090 GN=Rragc PE=1 SV=1
Q9HB90	Ras-related GTP-binding protein C OS=Homo sapiens OX=9606 GN=RRAGC PE=1 SV=1
Q9NQL2	Ras-related GTP-binding protein D OS=Homo sapiens OX=9606 GN=RRAGD PE=1 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0005111 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF04670 all species →	Gtr1_RagA	Gtr1/RagA G protein conserved region	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR006762 all species →	Family	Gtr1/RagA G protein	Interproscan
IPR039400 all species →	Family	RagC/D	Interproscan
IPR027417 all species →	Homologous_superfamily	P-loop containing nucleoside triphosphate hydrolase	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR11259 all species →	RAS-RELATED GTP BINDING RAG/GTR YEAST	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005525 all species →	Molecular Function	GTP binding	Interproscan
GO:0003924 all species →	Molecular Function	GTPase activity	Interproscan
GO:0005634 all species →	Cellular Component	nucleus	Interproscan
GO:0005764 all species →	Cellular Component	lysosome	Interproscan
GO:0009267 all species →	Biological Process	cellular response to starvation	Interproscan
GO:0010507 all species →	Biological Process	negative regulation of autophagy	Interproscan
GO:1990131 all species →	Cellular Component	Gtr1-Gtr2 GTPase complex	Interproscan

Search by domain instead of by gene. Any accession above (InterPro, Pfam, PANTHER, GO, KEGG) can be used as a query on the Functional Domain Search page, which searches all 148 annotated genomes at once.

KEGG pathway

KO	Enzyme	Enzyme ID	Pathway	Map ID	Source
K16186	RRAGC_D; Ras-related GTP-binding protein C/D	-	Shigellosis	ko05131	deepkoala

Searching by KO or pathway ID across all species is available on the KEGG Pathway page.

Expression pattern (RNA-seq)

Transcript abundance of OS493_025370-T1 across 110 RNA-seq samples of Lophelia pertusa. Values are TPM (transcripts per million) from the StringTie quantification; one bar is one sample, grouped and coloured by condition, sorted by expression within each group.

110Samples

110TPM > 0

7Conditions

112.3Max TPM

40.3Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	28.71	44.05
polyp at pH7 6	18	18	32.92	42.61
coral polyp · control treatment	16	16	47.75	83.33
coral polyp · oil and dispersant treatment	16	16	67.10	112.35
coral polyp · oil treatment	16	16	44.35	64.12
coral polyp · dispersant treatment	16	16	30.52	53.48
Polyp	10	10	28.47	55.19

Per sample · hover a bar for the full sample record · show / hide the sample table

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	44.05
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	35.73
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	35.35
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	35.06
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	34.74
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	31.01
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	30.83
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	29.55
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	28.47
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	27.91
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	27.88
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	26.27
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	26.10
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	23.31
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	21.39
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	20.66
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	20.19
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	18.25
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	42.61
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	41.42
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	40.41
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	39.45
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	39.36
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	39.03
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	38.05
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	37.94
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	37.73
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	37.69
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	32.10
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	32.09
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	30.19
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	29.21
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	28.54
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	26.19
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.11
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.41
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	83.33
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	59.69
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	58.95
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	48.71
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	47.63
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	46.48
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	46.05
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	44.95
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	44.62
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	44.26
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	43.78
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	43.00
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	39.61
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	39.26
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	38.84
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	34.85
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	112.35
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	110.19
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	73.29
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	73.10
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	71.61
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	71.01
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	69.18
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	64.71
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	61.74
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	60.31
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	54.92
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	54.70
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	52.92
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	51.89
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	46.60
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	45.00
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	64.12
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	56.65
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	53.74
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	50.22
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	48.04
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	47.82
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	46.89
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	43.81
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	42.78
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	42.72
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	42.33
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	41.98
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	41.60
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	38.63
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	26.14
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	22.15
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	53.48
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	49.58
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	46.96
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	38.10
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	36.40
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	35.42
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	34.12
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	32.84
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	30.20
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	29.14
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	22.25
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	21.43
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	19.26
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	18.92
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	14.37
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	5.80
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	55.19
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	37.75
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	36.32
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	29.58
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	28.55
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	27.64
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	23.56
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	18.11
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	15.76
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	12.21

Source: CnidoSite RNA-seq expression matrices (LPERT_TPM, StringTie quantification over 110 runs), joined to SRA sample metadata. Samples whose tissue/treatment is not recorded in the source metadata are grouped by the descriptor carried in the expression matrix itself.